RnoINT0043716 @ rn6
Intron Retention
Gene
ENSRNOG00000000481 | Cuta
Description
cutA divalent cation tolerance homolog [Source:RGD Symbol;Acc:1303306]
Coordinates
chr20:5532784-5533171:-
Coord C1 exon
chr20:5532963-5533171
Coord A exon
chr20:5532844-5532962
Coord C2 exon
chr20:5532784-5532843
Length
119 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGG
5' ss Score
6.92
3' ss Seq
TGATCTCGCTTCACCCTCAGGGC
3' ss Score
8.94
Exon sequences
Seq C1 exon
GCCACGCTGCTCCTGTCGTTTCTTTGCATGCCTGCCCTACTGCCGGTGGCTTCCCGCCTTCTATTGCTACCCCGAGCTCTGCTGTCCATGGCTTCTGGAAGCCCTCCGTCCCAGCCGTCGCCGGCCTCGGGCTCCGGCTACGTTCCAGGATCAGTCTCTGCAGCCTTTGTCACTTGTCCGAACGAAAAAGTCGCCAAGGAGATTGCCAG
Seq A exon
GTGGGGGAACTTCGGCCCGAGGACCTACGAAGGAAAGTTGGGGATAGGGAGAGGGTGCTGTCTCTGGGGTACTAGCACAACTCCAGGCCGTGCGCACTCTGATCTCGCTTCACCCTCAG
Seq C2 exon
GGCAGTGGTAGAGAAGCGCCTGGCAGCCTGCGTCAACCTCATCCCGCAGATCACATCCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000481:ENSRNOT00000000568:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.177 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0309110=CutA1=PU(17.6=25.7),PF0079315=DAHP_synth_1=PU(11.8=12.9)
A:
NA
C2:
PF0309110=CutA1=FE(19.6=100),PF0079315=DAHP_synth_1=FE(26.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCTCCTGTCGTTTCTTTGCA
R:
GTGATCTGCGGGATGAGGTTG
Band lengths:
256-375
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]